Interactive Visualization Framework Research Articles

Vitessce: integrative visualization of multimodal and spatially resolved single-cell data.

Multiomics technologies with single-cell and spatial resolution make it possible to measure thousands of features across millions of cells. However, visual analysis of high-dimensional transcriptomic, proteomic, genome-mapped and imaging data types simultaneously remains a challenge. Here we describe Vitessce, an interactive web-based visualization framework for exploration of multimodal and spatially resolved single-cell data. We demonstrate integrative visualization of millions of data points, including cell-type annotations, gene expression quantities, spatially resolved transcripts and cell segmentations, across multiple coordinated views. The open-source software is available at http://vitessce.io .

Insights into commonalities of a sample: A visualization framework to explore unusual subset-dataset relationships

Domain experts are driven by business needs, while data analysts develop and use various algorithms, methods, and tools, but often without domain knowledge. A major challenge for companies and organizations is to integrate data analytics in business processes and workflows. We deduce an interactive process and visualization framework to enable value creating collaboration in inter- and cross-disciplinary teams. Domain experts and data analysts are both empowered to analyze and discuss results and come to well-founded insights and implications. Inspired by a typical auditing problem, we develop and apply a visualization framework to single out unusual data in general subsets for potential further investigation. Our framework is applicable to both unusual data detected manually by domain experts or by algorithms applied by data analysts. Application examples show typical interaction, collaboration, visualization, and decision support.

Empowering sustainable farming practices with AI-enabled interactive visualization of hyperspectral imaging data

In the context of sustainable applications, this research investigates using artificial intelligence (AI) in interactive visualization for hyperspectral pictures. Detailed spectrum data about the Earth's surface is provided through hyperspectral imaging, allowing for the monitoring and analyzing several phenomena about agriculture, land use, and environmental sustainability. However, processing, analyzing, and interpreting the massive data produced by hyperspectral sensors is challenging. AI methods and interactive visualization provide practical tools for deriving useful information from hyperspectral data and assisting in decision-making for environmentally friendly applications. This study examines the key elements of an interactive visualization framework powered by AI and emphasizes the advantages and implications for sustainable agricultural operations. This sector's difficulties and potential possibilities are also discussed, focusing on the need for data processing optimization, technology integration, user-friendly interfaces, and ethical issues. In general, interactive hyperspectral image visualization powered by AI shows potential for improving sustainability in agriculture and other related fields.

Interactive 3D Visual Analysis of Weather Prediction Data Reveals Midlatitude Overshooting Convection during the CIRRUS-HL Field Experiment

Abstract In summer 2021, microphysical properties and climate impact of high- and midlatitude ice clouds over Europe and the North Atlantic were studied during the Cirrus High Latitude (CIRRUS-HL) airborne field campaign. The related forecasting and flight planning tasks provided a testbed for interactive 3D visual analysis. Operational analyses and forecasts from the European Centre for Medium-Range Weather Forecasts (ECMWF) were visualized with the open-source software “Met.3D.” A combination of traditional 2D displays with innovative 3D views in the interactive visualization framework facilitated rapid and comprehensive exploration of the NWP data. By this means, the benefit of interactive 3D visual forecast products in the routine flight planning procedure was evaluated. Here, we describe the use of 3D tropopause and cloud visualizations during a convective event over the Alps, which became one of the CIRRUS-HL observation targets. For the planning of the research flight on 8 July 2021, our analysis revealed that simulated strong convective updrafts locally disturb the tropopause and inject ice water across the dynamical tropopause into the lower stratosphere. The presented example provides a novel 3D perspective of convective overshooting in a global NWP model and its impact on the tropopause and lower stratosphere. The case study shall encourage the atmospheric science community to further evaluate the use of modern 3D visualization capabilities for NWP analysis.

SD^2: Slicing and Dicing Scholarly Data for Interactive Evaluation of Academic Performance.

Comprehensively evaluating and comparing researchers' academic performance is complicated due to the intrinsic complexity of scholarly data. Different scholarly evaluation tasks often require the publication and citation data to be investigated in various manners. In this paper, we present an interactive visualization framework, SD^2, to enable flexible data partition and composition to support various analysis requirements within a single system. SD^2 features the hierarchical histogram, a novel visual representation for flexibly slicing and dicing the data, allowing different aspects of scholarly performance to be studied and compared. We also leverage the state-of-the-art set visualization technique to select individual researchers or combine multiple scholars for comprehensive visual comparison. We conduct multiple rounds of expert evaluation to study the effectiveness and usability of SD^2 and revise the design and system implementation accordingly. The effectiveness of SD^2 is demonstrated via multiple usage scenarios with each aiming to answer a specific, commonly raised question.

ChroKit: a Shiny-based framework for interactive analysis, visualization and integration of genomic data.

We developed ChroKit (the Chromatin toolKit), an interactive web-based framework written in R that enables intuitive exploration, multidimensional analyses, and visualization of genomic data from ChIP-Seq, DNAse-Seq or any other NGS experiment that reports the enrichment of aligned reads over genomic regions. This program takes preprocessed NGS data and performs operations on genomic regions of interest, including resetting their boundaries, their annotation based on proximity to genomic features, the association to gene ontologies, and signal enrichment calculations. Genomic regions can be further refined or subsetted by user-defined logical operations and unsupervised classification algorithms. ChroKit generates a full range of plots that are easily manipulated by point and click operations, thus allowing 'on the fly' re-analysis and fast exploration of the data. Working sessions can be exported for reproducibility, accountability, and easy sharing within the bioinformatics community. ChroKit is multiplatform and can be deployed on a server to enhance computational speed and provide simultaneous access by multiple users. ChroKit is a fast and intuitive genomic analysis tool suited for a wide range of users due to its architecture and its user-friendly graphical interface. ChroKit source code is available at https://github.com/ocroci/ChroKit and the Docker image at https://hub.docker.com/r/ocroci/chrokit.

INPHOVIS: Interactive visual analytics for smartphone-based digital phenotyping

Digital phenotyping is the characterization of human behavior patterns based on data from digital devices such as smartphones in order to gain insights into the users’ state and especially to identify ailments. To support supervised machine learning, digital phenotyping requires gathering data from study participants’ smartphones as they live their lives. Periodically, participants are then asked to provide ground truth labels about their health status. Analyzing such complex data is challenging due to limited contextual information and imperfect health/wellness labels. We propose INteractive PHOne-o-typing VISualization (INPHOVIS), an interactive visual framework for exploratory analysis of smartphone health data to study phone-o-types. Prior visualization work has focused on mobile health data with clear semantics such as steps or heart rate data collected using dedicated health devices and wearables such as smartwatches. However, unlike smartphones which are owned by over 85 percent of the US population, wearable devices are less prevalent thus reducing the number of people from whom such data can be collected. In contrast, the “low-level” sensor data (e.g., accelerometer or GPS data) supported by INPHOVIS can be easily collected using smartphones. Data visualizations are designed to provide the essential contextualization of such data and thus help analysts discover complex relationships between observed sensor values and health-predictive phone-o-types. To guide the design of INPHOVIS, we performed a hierarchical task analysis of phone-o-typing requirements with health domain experts. We then designed and implemented multiple innovative visualizations integral to INPHOVIS including stacked bar charts to show diurnal behavioral patterns, calendar views to visualize day-level data along with bar charts, and correlation views to visualize important wellness predictive data. We demonstrate the usefulness of INPHOVIS with walk-throughs of use cases. We also evaluated INPHOVIS with expert feedback and received encouraging responses.

π-means: Granular Approach towards Interactive Data Exploration

In this paper, we examine the possibility of employing the idea of progressive-inductive (π) aggregation in the k-means algorithm. We base our work on the interactive visualization framework called Skydive which is a tightly coupled system that combines data aggregation and visual aggregation for smooth user interaction. It is based on an aggregate pyramid data structure (π-cube), allowing a visualization client to quickly filter the data. Skydive was designed for interactive data visualization in terms of expressiveness and efficiency. Therefore, the underlying data structure enabled access to data on desired levels of granularity. In this paper, we utilize this concept to speed up the process of clustering proposing π-means - a modified version of the k-means algorithm. This will allow us to explore further possible applications of π-cube towards interactive data exploration.

RETRACTED ARTICLE: Intelligent business framework for interactive data visualization of small and medium-sized enterprises in developing countries

RETRACTED ARTICLE: Intelligent business framework for interactive data visualization of small and medium-sized enterprises in developing countries

Visualization Techniques for the Comparative Analysis of Multivariate Data of Fiber Reinforced Polymers

The comparative analysis of data from multiple candidate material systems is essential for the improvement and development of advanced composite materials. Since the characteristics (e.g., length, orientation) of individual objects (e.g., pores, fibers) are crucial for the properties and the behavior of materials, the exploration of these is of utmost importance. Currently, the comparison of these multivariate, numerical data requires significant mental efforts, since the experts have to perform a sequential comparison of many slightly different charts. This work aims to simplify the workflow for comparing many datasets by providing experts with an interactive visualization framework. By combining different representations at various levels of detail, it assists users to get a holistic view on the similarities of the objects and their characteristics. An overview visualization allows to determine the similarity of the objects of several samples, additional detail visualizations give the user detailed information about groups of similar structures. We demonstrate the applicability of our tool on two use cases, a fiber material subjected to an in situ test, and a comparative study of multiple pore datasets.

A Framework for Interactive Visual Interpretation of Remote Sensing Data

Machine learning methods have shown tremendous success in understanding earth observation data; however, recently, there is a rising claim toward explainable machine learning approaches. Concerned researchers found interpretable visualizations to be greatly helpful in understanding how a model works. In this research, we propose a framework for interactive and interpretable visualization of remote sensing data using two machine learning models and an Elasticsearch (ES) database. Two explainable machine learning models, namely, bag-of-visual-words (BoVWs) and latent Dirichlet allocation (LDA) are chosen to model the data in an unsupervised manner and give a textual representation. The textualized remote sensing data are stored in an ES database. This framework offers several fast content-based search functionalities exploiting the full-text query capabilities of ES based on the respective representations and also offers an efficient storage mechanism for the data.

Digital Twins Visualization of Large Electromechanical Equipment

Digital Twin is a bridge connecting physical world and virtual world, which can provide support for large electromechanical equipment in design, production and maintenance. Large electromechanical equipment is complex which brings difficulties for Digital Twins Visualization. In this paper, an interactive Digital Twin visualization framework is proposed for large electromechanical equipment. Using offline pre-rasterization and interactive cloud-end fusion rendering, complex equipment model can be rendered rapidly. Finally, a case study of heavy trucks is introduced to verify the system.

WITHDRAWN: Design of visual art elements in a sustainable urban transportation system information platform

Many cities and countries strive to create smart transportation systems that use the abundance of multisource and multi-data on transport infrastructure functionality and improve human mobility, interests, and lifestyle. The challenges in a sustainable urban transportation system include behavioral visualization, road behavior classification, anomalies detection, and traffic prediction by the human operator. In this paper, an interactive visual analytics localization mapping framework (IVALMF) has been proposed to enhance the exploration by unified interactive interfaces of historical data and prediction of future traffic. Furthermore, low-cost traffic data analysis is introduced to enhance visual analytics related to analyzing motion and transport systems. Hypothetical information clustering analysis is integrated with IVALMF to enable the exploration, visual detection of rare events, testing hypotheses, and prevention of traffic flow supported by advanced data analytical algorithms of the behavioral similarities among roads. The simulation analysis is performed based on scalability and efficiency, proving the reliability of the proposed framework with 96.17%. • An interactive visual analytics localization mapping framework (IVALMF) has been proposed to enhance the exploitation of future traffic.

ARGUS: Interactive visual analysis of disruptions in smartphone-detected Bio-Behavioral Rhythms

Human Bio-Behavioral Rhythms (HBRs) such as sleep-wake cycles (Circadian Rhythms), and the degree of regularity of sleep and physical activity have important health ramifications. Ubiquitous devices such as smartphones can sense HBRs by continuously analyzing data gathered passively by built-in sensors to discover important clues about the degree of regularity and disruptions in behavioral patterns. As human behavior is complex and smartphone data is voluminous with many channels (sensor types), it can be challenging to make meaningful observations, detect unhealthy HBR deviations and most importantly pin-point the causes of disruptions. Prior work has largely utilized computational methods such as machine and deep learning approaches, which while accurate, are often not explainable and present few actionable insights on HBR patterns or causes. To assist analysts in the discovery and understanding of HBR patterns, disruptions and causes, we propose ARGUS, an interactive visual analytics framework. As a foundation of ARGUS, we design an intuitive Rhythm Deviation Score (RDS) that analyzes users’ smartphone sensor data, extracts underlying twenty-four-hour rhythms and quantifies their degree of irregularity.​ This score is then visualized using a glyph that makes it easy to recognize disruptions in the regularity of HBRs. ARGUS also facilitates deeper HBR insights and understanding of causes by linking multiple visualization panes that are overlaid with objective sensor information such as geo-locations and phone state (screen locked, charging), and user-provided or smartphone-inferred ground truth information. This array of visualization overlays in ARGUS enables​ analysts to gain a more comprehensive picture of HBRs, behavioral patterns and deviations from regularity. The design of ARGUS was guided by a goal and task analysis study involving an expert versed in HBR and smartphone sensing. To demonstrate its utility and generalizability, two different datasets were explored using ARGUS and our use cases and designs were strongly validated in evaluation sessions with expert and non-expert users.

VISPR-online: a web-based interactive tool to visualize CRISPR screening experiments

BackgroundVISPR is an interactive visualization and analysis framework for CRISPR screening experiments. However, it only supports the output of MAGeCK, and requires installation and manual configuration. Furthermore, VISPR is designed to run on a single computer, and data sharing between collaborators is challenging.ResultsTo make the tool easily accessible to the community, we present VISPR-online, a web-based general application allowing users to visualize, explore, and share CRISPR screening data online with a few simple steps. VISPR-online provides an exploration of screening results and visualization of read count changes. Apart from MAGeCK, VISPR-online supports two more popular CRISPR screening analysis tools: BAGEL and JACKS. It provides an interactive environment for exploring gene essentiality, viewing guide RNA (gRNA) locations, and allowing users to resume and share screening results.ConclusionsVISPR-online allows users to visualize, explore and share CRISPR screening data online. It is freely available at http://vispr-online.weililab.org, while the source code is available at https://github.com/lemoncyb/VISPR-online.

SimText: a text mining framework for interactive analysis and visualization of similarities among biomedical entities.

SummaryLiterature exploration in PubMed on a large number of biomedical entities (e.g. genes, diseases or experiments) can be time-consuming and challenging, especially when assessing associations between entities. Here, we describe SimText, a user-friendly toolset that provides customizable and systematic workflows for the analysis of similarities among a set of entities based on text. SimText can be used for (i) text collection from PubMed and extraction of words with different text mining approaches, and (ii) interactive analysis and visualization of data using unsupervised learning techniques in an interactive app.Availability and implementationWe developed SimText as an open-source R software and integrated it into Galaxy (https://usegalaxy.eu), an online data analysis platform with supporting self-learning training material available at https://training.galaxyproject.org. A command-line version of the toolset is available for download from GitHub (https://github.com/dlal-group/simtext) or as Docker image (https://hub.docker.com/r/dlalgroup/simtext/tags.).Supplementary information Supplementary data are available at Bioinformatics online.

Geospatial Decision-Making Framework Based on the Concept of Satisficing

Decision-making methods used in geospatial decision making are computationally complex prescriptive methods, the details of which are rarely transparent to the decision maker. However, having a deep understanding of the details and mechanisms of the applied method is a prerequisite for the efficient use thereof. In this paper, we present a novel decision-making framework that emanates from the need for intuitive and easy-to-use decision support systems for geospatial multi-criteria decision making. The framework consists of two parts: the decision-making model Even Swaps on Reduced Data Sets (ESRDS), and the interactive visualization framework. The decision-making model is based on the concept of satisficing, and as such, it is intuitive and easy to understand and apply. It integrates even swaps, a prescriptive decision-making method, with the findings of behavioural decision-making theories. Providing visual feedback and interaction opportunities throughout the decision-making process, the interactive visualization part of the framework helps the decision maker gain better insight into the decision space and attribute dependencies. Furthermore, it provides the means to analyse and compare the outcomes of different scenarios and decision paths.

A Framework for Interactive Online 3D Visualization of Electric Information

To manage the electric network effectively, 3D visualization framework is necessary to reveal the complexity of power grid system. In this paper, an interactive online 3D visualization framework is proposed to visualize the electric network related information from power station to the static data of the system. We applied Cesium, an open source platform for 3D visualization based on WebGL supported browsers. Meanwhile, multiple Level of Detail (LoD) structure of power grid facility is generated to improve the speed of 3D model loading and rendering. The experimental results indicate that the proposed framework can integrate and dynamic visualize power grid information from multiple sources. The multiple LoD structure can reduce the model loading time by 76% and increase the FPS over 50% according to the tests on sample data.

A Three-Dimensional Visualization Framework for Underground Geohazard Recognition on Urban Road-Facing GPR Data

The identification of underground geohazards is always a difficult issue in the field of underground public safety. This study proposes an interactive visualization framework for underground geohazard recognition on urban roads, which constructs a whole recognition workflow by incorporating data collection, preprocessing, modeling, rendering and analyzing. In this framework, two proposed sampling point selection methods have been adopted to enhance the interpolated accuracy for the Kriging algorithm based on ground penetrating radar (GPR) technology. An improved Kriging algorithm was put forward, which applies a particle swarm optimization (PSO) algorithm to optimize the Kriging parameters and adopts in parallel the Compute Unified Device Architecture (CUDA) to run the PSO algorithm on the GPU side in order to raise the interpolated efficiency. Furthermore, a layer-constrained triangulated irregular network algorithm was proposed to construct the 3D geohazard bodies and the space geometry method was used to compute their volume information. The study also presents an implementation system to demonstrate the application of the framework and its related algorithms. This system makes a significant contribution to the demonstration and understanding of underground geohazard recognition in a three-dimensional environment.

An Interactive Data Visualization Framework for Exploring Geospatial Environmental Datasets and Model Predictions

With the rise of large-scale environmental models comes new challenges for how we best utilize this information in research, management and decision making. Interactive data visualizations can make large and complex datasets easier to access and explore, which can lead to knowledge discovery, hypothesis formation and improved understanding. Here, we present a web-based interactive data visualization framework, the Interactive Catchment Explorer (ICE), for exploring environmental datasets and model outputs. Using a client-based architecture, the ICE framework provides a highly interactive user experience for discovering spatial patterns, evaluating relationships between variables and identifying specific locations using multivariate criteria. Through a series of case studies, we demonstrate the application of the ICE framework to datasets and models associated with three separate research projects covering different regions in North America. From these case studies, we provide specific examples of the broader impacts that tools like these can have, including fostering discussion and collaboration among stakeholders and playing a central role in the iterative process of data collection, analysis and decision making. Overall, the ICE framework demonstrates the potential benefits and impacts of using web-based interactive data visualization tools to place environmental datasets and model outputs directly into the hands of stakeholders, managers, decision makers and other researchers.